Growth-chamber Spartina alterniflora root, autoclaved soil, unoiled, mesocosm 26
Root tissue for stranded RNA-seq from a growth-chamber mesocosm experiment testing the effect of weathered Deepwater Horizon oil and soil autoclaving on the Spartina alterniflora root transcriptome. This is an experimental sample, not a field sample. Organism submitted under the current NCBI Taxonomy name Sporobolus alterniflorus (txid 29706), synonym Spartina alterniflora.
isolate
SF1_mesocosm_26
cultivar
not applicable
ecotype
not applicable
age
126 days
dev_stage
vegetative
collection_date
2018-09-08
geo_loc_name
USA: Louisiana, New Orleans
lat_lon
29.9404 N 90.1215 W
tissue
root
biomaterial_provider
Van Bael Lab, Department of Ecology and Evolutionary Biology, Tulane University, 6823 St. Charles Ave, New Orleans, LA 70118, USA
collected_by
Stephen Formel
growth_protocol
Mesocosm: 1.9 L glass jar (14.1 cm ID) with drain holes, inside a 3.8 L HDPE bucket, holding ~1800 mL soil. 12 surface-sterilized seeds planted per mesocosm, thinned to the single largest plant after one month. Conviron GR48 walk-in growth chamber, 4 randomized blocks rotated weekly: 29 C / full light (~175 umol m-2 s-1 at soil surface) 06:00-20:00 and 27 C / dark 20:00-06:00, ~70% RH. Mesocosms kept flooded to the soil surface with tap water, fully drained and refilled weekly. After thinning, 1 g Osmocote Plus 15-9-12 NPK added and the soil surface covered with 75 mL autoclaved sand to limit sporefall.
isolation_source
EXPERIMENTAL SAMPLE, NOT A FIELD SAMPLE. Fine roots (~1 mm diameter, white/turgid) sampled haphazardly from the interior of the root ball of a single plant grown 126 days in a 1.9 L glass mesocosm inside a Conviron GR48 walk-in growth chamber at Tulane University, New Orleans, Louisiana, USA, containing twice-autoclaved (121 C, 60 min x2) salt marsh soil sourced from Bay Jimmy, Louisiana, USA; no oil added. Rinsed in water and frozen in liquid nitrogen within ~6 min of collection, stored at -80 C.
population
Half-sibling family; all seed collected 2017-11 from a single visibly distinct clump of stems at Grand Isle State Park, Louisiana, USA
sample_type
plant tissue
temp
29 C day / 27 C night
treatment
autoclaved soil, without 10% (v/v) weathered Deepwater Horizon crude oil
soil_treatment
autoclaved
oil_treatment
no
mesocosm_id
26
experimental_block
1
BioSampleModel
Plant